Sequence
atgc intronic sequence ATGC exonic sequence...tacctttcaattgaaatttttagaattcaattagttcttatttttaagattttggagtagttttgaatttcagcagctcaccatctattctctgtggtagTTACTGAACTTGTGGAAGGCGACTCATCAAGGAAAATCGTTGAAATAATATGCCGTACAAGTTGGTTGAAATCTGAGAATCATTGTGGCAGAATTGAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g05000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G34380.1 (Glycine max), 3'ss of exon 1
tacctttcaattgaaattt-ttagaattcaa-ttagttcttatttttaag--attttggagtagttttgaatttcagcagctcaccatctattctctgtggtagTTACTGAACTTGTGGAAGGCGACTCATCAAGGAAAATCGTTGAAATAATATGCCGTACAAGTTGGTTGAAATCTGAGAATCATTGTGGCAGAATTGAGAG
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ctcctcttaaatgccttttatttgaattcaagtttgtttatagtttggtgttgttttcacacatgttaagaattaaagagatt----ttttttttgttggacagTTACTGAACTTGTGGAAGGAGATTCATCAAGGAAAATAGTGGAGATAATATGCAGGACGAGCTGGTTGAAGTCTGAGAAACAATGTGGTAGAATTGAGAG
upper sequence: Vv19s0014g05000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G36170.1 (Glycine max), 3'ss of exon 2
tacctttcaattgaaatttttagaattcaa-ttagttcttatttttaag--attttggagtagttttgaatttcagcagctcaccatctattctctgtggtagTTACTGAACTTGTGGAAGGCGACTCATCAAGGAAAATCGTTGAAATAATATGCCGTACAAGTTGGTTGAAATCTGAGAATCATTGTGGCAGAATTGAGAG
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--ctcttcaatgtcttttatttgaattcaagtttgtttatagtttaatgttgttttcacacatgttaagaattaaagagagaaagtttttttttttg-ggcagTTACTGAACTTGTGGAAGGTGATTCATCAAGGAAAATAGTGGAGATAATATGCAGGACTAGCTGGTTGAAGTCTGAGAACCAATGCGGTAGAATTGAGAG
upper sequence: Vv19s0014g05000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G16630.1 (Glycine max), 3'ss of exon 2
tacctttcaa--ttgaaatttttagaattcaattagttcttatttttaagattttggagt--agttttgaatttcagcagctcaccatctattctctgtggtagTTACTGAACTTGTGGAAGGCGACTCATCAAGGAAAATCGTTGAAATAATATGCCGTACAAGTTGGTTGAAATCTGAGAATCATTGTGGCAGAATTGAGAG
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---cctccaagtttgttactatttttgtattgttttgacatattttaagtgtcatatatttcaattttcaagtttaagagca-ataagttctttcccttggcagTGACTGAACTTGTGGAAGGAGATTCTTCAAGGAAAATAGTGGAGATCATATGCAGGACTAGCTGGTTAAAGTCTGAAAACCAGTGTGGTAGAATTGAGAG
upper sequence: Vv19s0014g05000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G41530.1 (Glycine max), 3'ss of exon 1
tacctttcaattgaaatttttagaattcaattagttcttatttttaagattttggagt--agttttgaatttcagcagctcaccatctattctctgtggtagTTACTGAACTTGTGGAAGGCGACTCATCAAGGAAAATCGTTGAAATAATATGCCGTACAAGTTGGTTGAAATCTGAGAATCATTGTGGCAGAATTGAGAG
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gaagtgtcaatgacctccattttgttaccatttttgtattgttttagtgtcacaaatttcagttttcgagtttaagagca-ataagtttttcact-tggcagTGACTGAACTTGTGGAAGGAGATTCATCAAGGAAAATAGTGGAGATCATATGCAGGACTAGCTGGTTAAAGTCAGAAAACCAGTGTGGTAGAATTGAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagattttggagtagttttgaatttcagcagctcaccatctattctctgtggtagTTACTGAACTTGTGGAAGGCGACTCATCAAGGAAAATCGTTGAAATAATATGCCGTACAAGTTGGTTGAAATCTGAGAATCATTGTGGCAGAATTGAGAG
agctcac putative branch site (score: 3)
tctattctct putative PPT
ttttgaattt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacctttcaattgaaatttttagaattcaattagttcttatttttaagattttggagtagttttgaatttcagcagctcaccatctattctctgtggtagTTACTGAACTTGTGGAAGGCGACTCATCAAGGAAAATCGTTGAAATAATATGCCGTACAAGTTGGTTGAAATCTGAGAATCATTGTGGCAGAATTGAGAG
- - - - aattgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcacca